ome-zarr-converter

There are 6 repositories under ome-zarr-converter topic.

• glencoesoftware / bioformats2raw

  Bio-Formats image file format to raw format converter

  ome-zarr-converter
  Language:Java 73

• spatial-image / multiscale-spatial-image

  Generate a multiscale, chunked, multi-dimensional spatial image data structure that can serialized to OME-NGFF.

  imagingmultiscalengffpythonscientific-computingxarrayome-zarr-converter
  Language:Python 27

• scalableminds / webknossos-libs

  Python API and CLI tools for working with WEBKNOSSOS datasets, annotations and server interactions. Includes converter to OME-Zarr.

  webknossosvolume-emhacktoberfestome-zarr-converter
  Language:Python 22

• thewtex / ngff-zarr

  A lean and kind Open Microscopy Environment (OME) Next Generation File Format (NGFF) Zarr implementation.

  daskimagingmedicalmicroscopyome-zarrpythonome-zarr-converter
  Language:Python 18

• ome / omero-cli-zarr

  omerozarrngffome-zarr-converter
  Language:Python 15

• Euro-BioImaging / BatchConvert

  A nextflow based tool that wraps bfconvert and bioformats2raw to convert image data collections to OME-TIFF and OME-Zarr, respectively, in a parallelised manner.

  bioimageconversionfile-formatimagenextflowomeome-zarrworkflowzarrome-zarr-converterome-tiff
  Language:Python 13

• saalfeldlab / n5-ij

  ImageJ convenience layer for N5

  fijifiji-pluginhdf5n5ome-zarr-converterzarr
  Language:Java 13

• fractal-analytics-platform / fractal-tasks-core

  Main tasks for the Fractal analytics platform

  ome-zarr-converterome-zarr
  Language:Python 11

• InsightSoftwareConsortium / ITKIOOMEZarrNGFF

  ITK IO for images stored in OME-Zarr format.

  imaginginsight-toolkititkome-zarrome-zarr-converter
  Language:C++ 8

• fmi-faim / faim-ipa

  Package to organize high content screening experiments.

  ome-zarr-converterome-zarr
  Language:Python 7

• FrancisCrickInstitute / OmeSliCC

  Ome(ro) SLide Image Conversion and Compression pipline (OmeSliCC)

  ome-zarr-converter
  Language:Python 7

• BioinfoTongLI / to_ome_tif

  nextflow DSL2 pipeline (leveraging /[raw2ometiff](https://github.com/glencoesoftware/raw2ometiff)) to convert almost any images to ome.tiff/ome.zarr

  ome-zarr-converter
  Language:Nextflow 3

• BodenmillerGroup / mcd2zarr

  Command line tool to convert MCD files to Zarr

  ome-zarr-converter
  Language:Python 2

• DistributedScience / Distributed-OMEZarrCreator

  Run encapsulated docker containers with BioFormats2Raw in the Amazon Web Services infrastructure.

  awsdistributeddistributed-computingngffome-zarrome-zarr-converter
  Language:Python 2